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Coexpression cluster:C181: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000475!7.15e-13!365;UBERON:0003104!3.22e-11!238;UBERON:0009142!3.22e-11!238;UBERON:0002100!6.50e-11!216;UBERON:0000481!6.27e-10!347;UBERON:0003102!8.50e-10!95;UBERON:0005256!1.16e-08!143;UBERON:0002199!2.32e-08!45;UBERON:0002416!2.32e-08!45;UBERON:0002097!3.06e-08!40;UBERON:0000914!9.39e-08!83;UBERON:0002329!9.39e-08!83;UBERON:0003077!9.39e-08!83;UBERON:0003059!9.39e-08!83;UBERON:0007282!9.39e-08!83;UBERON:0009618!9.39e-08!83;UBERON:0007285!9.39e-08!83;UBERON:0004290!4.21e-07!70;UBERON:0000486!5.94e-07!82
|ontology_enrichment_uberon=UBERON:0000475!7.15e-13!365;UBERON:0003104!3.22e-11!238;UBERON:0009142!3.22e-11!238;UBERON:0002100!6.50e-11!216;UBERON:0000481!6.27e-10!347;UBERON:0003102!8.50e-10!95;UBERON:0005256!1.16e-08!143;UBERON:0002199!2.32e-08!45;UBERON:0002416!2.32e-08!45;UBERON:0002097!3.06e-08!40;UBERON:0000914!9.39e-08!83;UBERON:0002329!9.39e-08!83;UBERON:0003077!9.39e-08!83;UBERON:0003059!9.39e-08!83;UBERON:0007282!9.39e-08!83;UBERON:0009618!9.39e-08!83;UBERON:0007285!9.39e-08!83;UBERON:0004290!4.21e-07!70;UBERON:0000486!5.94e-07!82
|tfbs_overrepresentation=0.874607,0.849594,0.170913,0.783881,0.992593,0.905085,0.747767,0.997603,0.647384,0.557793,0.94836,0.407657,0.782422,0.923212,0.99355,0.864958,0.991448,0.960787,0.817568,0.97221,0.99857,0.289658,0.747693,0.818648,0.73564,0.490621,0.99469,0.949203,0.95468,0.811252,0.295517,0.977498,0.434553,0.853959,0.884332,0.937043,0.424642,0.747443,0.909728,0.636329,0.958372,0.541965,0.949307,0.998291,0.114683,0.685464,0.703118,0.294797,0.975192,0.982547,0.601012,0.825415,0.89766,0.953036,0.999036,0.706957,0.971616,0.474425,0.723919,0.863678,0.607801,0.396456,0.0308832,0.707518,0.827654,0.802756,0.870697,0.13205,0.940401,0.924697,0.961048,0.179812,0.559085,0.907204,0.209532,0.102882,0.615793,0.75338,0.69561,0.203934,0.822093,0.903974,0.743543,0.894515,0.982606,0.556245,0.616201,0.999356,0.864032,0.868725,0.770501,0.796807,0.956758,0.781438,0.938988,0.895051,0.831669,0.4237,0.952629,0.87228,0.553346,0.990598,0.856902,0.693792,0.654955,0.376507,0.886118,0.529095,0.992401,0.999418,0.874967,0.661683,0.881585,0.428278,0.964699,0.658988,0.474732,0.11316,0.947734,0.935665,0.996702,0.0836023,0.991176,0.939807,0.851315,0.997758,0.949144,0.373113,0.521315,0.989345,0.854077,0.912594,0.84215,0.514329,0.24888,0.694516,0.877706,0.831981,0.283633,0.116777,0.514171,0.799799,0.973458,0.168172,0.869538,0.894694,0.961625,0.936514,0.711935,0.910961,0.701479,0.99225,0.948125,0.570085,0.745289,0.980125,0.912371,0.701507,0.81048,0.658685,0.99723,0.956609,0.899713,0.876258,0.933315,0.977686,0.722002,0.986003,0.724909,0.506244,0.866273,0.0206489,0.57877,0.825159,0.926489,0.948066,0.338167,0.949701,0.997885,0.31446,0.90655,0.983322,0.581347,0.738807,0.909248,0.981021,0.876216,0.7233,0.933497,0.997454,0.869409,0.988707,0.777593,0.961486,0.976378,0.0670055,0.723438,0.857483,0.0246628,0.973745,0.946659,0.858015,0.625166,0.858985,0.989915,0.828033,0.997264,0.888233,0.994087,0.735216,0.770341,0.670438,0.911774,0.888612,0.625366,0.928629,0.918776,0.0532549,0.869809,0.966812,0.952116,0.0673217,0.99509,0.995919,0.909662,0.418279,0.846084,0.940198,0.858275,0.855618,0.916081,0.99337,0.737949,0.9174,0.823454,0.367385,0.06765,0.616216,0.487114,0.980909,0.998187,0.919086,0.961055,0.754607,0.979212,0.944206,0.930338,0.171264,0.861693,0.746841,0.907052,0.95422,0.954963,0.626888,0.960635,0.634782,0.284872,0.176128,0.895633,0.267473,0.865055,0.851582,0.916987,0.802022,0.667301,0.929279,0.92951,0.951503,0.903702,0.233973,0.69156,0.871096,0.218242,0.957198,0.941451,0.703401,0.987346,0.776116,0.960745,0.247227,0.954045,0.806483,0.329774,0.136249,0.995692,0.918573,0.835084,0.925933,0.499238,0.0154396,0.98828,0.603018,0.988665,0.876623,0.943159,0.379155,0.930808,0.958403,0.932541,0.519772,0.999866,0.93864,0.956851,0.941523,0.872377,0.741289,0.303332,0.994986,0.507043,0.574948,0.872696,0.873951,0.196966,0.933029,0.369197,0.290271,0.909248,0.0745283,0.893889,0.973554,0.931309,0.32655,0.752392,0.677522,0.826878,0.448076,0.356058,0.997413,0.0113885,0.982802,0.995136,0.597171,0.9998,0.755045,0.981525,0.210761,0.918725,0.244976,0.481604,0.443173,0.67185,0.722556,0.02498,0.787904,0.990372,0.621469,0.854356,0.873065,0.770935,0.438973,0.687375,0.494239,0.699512,0.789277,0.586442,0.934792,0.996244,0.639209,0.6868,0.312947,0.937757,0.525309,0.869387,0.848287,0.58117,0.901487,0.821109,0.998061,0.0934166,0.899206,0.985957,0.764547,0.912352,0.0199208,0.380634,0.92435,0.99175,0.984266,0.976671,0.942262,0.503393,0.994316,0.653959,0.882446,0.33737,0.961996,0.997267,0.823702,0.817606,0.969227,0.468306,0.808659,0.97107,0.988115,0.942938,0.987387,0.890142,0.956119,0.724755,0.8318,0.410055,0.674485,0.946858,0.802828,0.890559,0.775595,0.990149,0.984059,0.830483,0.835473,0.856076,0.849896,0.998156,0.996756,0.708313,0.937598,0.918671,0.826405,0.951785,0.898122,0.838254,0.998137,0.691181,0.963033,0.994256,0.987138,0.998976,0.338952,0.728471,0.783757,0.456042,0.908699,0.647454,0.99622,0.619901,0.46131,0.991687,0.711061,0.367805,0.792429,0.853448,0.39007,0.915374,0.486632,0.946357,0.854002,0.636054,0.872663,0.857137,0.706356,0.980655,0.964277,0.822612,0.214171,0.39539,0.527899,0.896282,0.833907,0.901264,0.467554,0.843982,0.955464,0.801481,0.993521,0.95269,0.219386,0.352456,0.975753,0.908293,0.406371,0.693745,0.417352,0.989313,0.282528,0.303683,0.868924,0.982495,0.432365,0.350438,0.577085,0.945027,0.774942,0.365347,0.977922,0.67177,0.566306,0.540387,0.972446,0.971271,0.754745,0.114978,0.917735,0.986874,0.460757,0.903938,0.128198,0.799392,0.288423,0.88499,0.601491,0.713955,0.656487,0.811993,0.809904,0.935982,0.481666,0.787157,0.99908,0.981571,0.800491,0.99766,0.76377,0.13372,0.164028,0.82023,0.298602,0.999623,0.148722,0.427823,0.140306,0.937071,0.343156,0.938852,0.0164431,0.643932,0.759993,0.502141,0.740711,0.966082,0.926131,0.95971,0.909665,0.983937,0.949074,0.83458,0.814257,0.678862,0.945023,0.369244,0.881074,0.468804,0.984014,0.927029,0.448354,0.913479,0.998802,0.829554,0.921418,0.836642,0.73729,0.66761,0.711294,0.571667,0.529923,0.919903,0.792113,0.997582,0.951574,0.651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}}
}}

Revision as of 17:41, 8 August 2012


Full id: C181_liposarcoma_somatostatinoma_neuroblastoma_mesothelioma_nonsmall_small_Alveolar



Phase1 CAGE Peaks

Hg19::chr10:108432714..108432740,-p@chr10:108432714..108432740
-
Hg19::chr10:14216356..14216380,-p@chr10:14216356..14216380
-
Hg19::chr12:124950936..124950962,-p@chr12:124950936..124950962
-
Hg19::chr12:58122334..58122339,-p@chr12:58122334..58122339
-
Hg19::chr12:58123263..58123274,-p@chr12:58123263..58123274
-
Hg19::chr12:58123312..58123320,-p@chr12:58123312..58123320
-
Hg19::chr12:58123333..58123340,-p@chr12:58123333..58123340
-
Hg19::chr12:58123351..58123361,-p@chr12:58123351..58123361
-
Hg19::chr12:58123400..58123407,-p@chr12:58123400..58123407
-
Hg19::chr12:58128984..58128991,-p@chr12:58128984..58128991
-
Hg19::chr12:58131486..58131509,+p7@TSPAN31
Hg19::chr12:58131517..58131527,+p11@TSPAN31
Hg19::chr12:58131797..58131814,+p8@TSPAN31
Hg19::chr12:58131817..58131842,+p5@TSPAN31
Hg19::chr12:58131866..58131892,+p6@TSPAN31
Hg19::chr12:58131931..58131942,-p7@AGAP2
Hg19::chr12:58138778..58138789,+p2@TSPAN31
Hg19::chr12:58138800..58138860,+p1@TSPAN31
Hg19::chr12:58142093..58142107,-p@chr12:58142093..58142107
-
Hg19::chr12:58142121..58142144,-p@chr12:58142121..58142144
-
Hg19::chr12:58142150..58142249,-p@chr12:58142150..58142249
-
Hg19::chr12:58142997..58143015,-p@chr12:58142997..58143015
-
Hg19::chr12:58143018..58143051,-p@chr12:58143018..58143051
-
Hg19::chr12:58145555..58145603,-p3@CDK4
Hg19::chr12:58145604..58145631,-p4@CDK4
Hg19::chr12:58145889..58145914,-p5@CDK4
Hg19::chr12:58146048..58146118,-p1@CDK4
Hg19::chr12:58146128..58146169,-p2@CDK4
Hg19::chr12:58165870..58165911,-p1@METTL1
Hg19::chr12:58166370..58166423,+p1@METTL21B
Hg19::chr12:58166431..58166451,+p3@METTL21B
Hg19::chr12:58166726..58166754,+p1@ENST00000471530
Hg19::chr12:58176525..58176586,+p1@TSFM
Hg19::chr12:58287614..58287637,-p1@ENST00000548955
Hg19::chr12:58903110..58903112,-p@chr12:58903110..58903112
-
Hg19::chr12:58934549..58934562,+p@chr12:58934549..58934562
+
Hg19::chr12:59313930..59313955,-p7@LRIG3
Hg19::chr12:59313958..59314020,-p2@LRIG3
Hg19::chr12:59314028..59314071,-p3@LRIG3
Hg19::chr12:59314073..59314096,-p5@LRIG3
Hg19::chr12:59314097..59314106,-p9@LRIG3
Hg19::chr12:70637101..70637172,-p1@ENST00000549419
p1@ENST00000549651
p1@ENST00000550216
p1@ENST00000553135
Hg19::chr12:70637205..70637233,+p1@CNOT2
Hg19::chr12:72233530..72233563,+p1@TBC1D15
Hg19::chr12:72290195..72290204,+p11@TBC1D15
Hg19::chr12:78333879..78333896,+p21@NAV3
Hg19::chr12:78333898..78333912,+p27@NAV3
Hg19::chr12:78333998..78334003,+p20@NAV3
Hg19::chr12:78334005..78334016,+p7@NAV3
Hg19::chr12:78940817..78940821,-p@chr12:78940817..78940821
-
Hg19::chr12:78950321..78950324,-p@chr12:78950321..78950324
-
Hg19::chr12:82085811..82085817,+p@chr12:82085811..82085817
+
Hg19::chr12:82115146..82115152,+p@chr12:82115146..82115152
+
Hg19::chr12:82145204..82145208,+p@chr12:82145204..82145208
+
Hg19::chr12:90177655..90177684,-p@chr12:90177655..90177684
-
Hg19::chr18:14970228..14970238,-p@chr18:14970228..14970238
-
Hg19::chr18:14970256..14970271,-p@chr18:14970256..14970271
-
Hg19::chr18:14970301..14970343,-p@chr18:14970301..14970343
-
Hg19::chr18:65984050..65984068,-p@chr18:65984050..65984068
-
Hg19::chr18:66162229..66162240,-p@chr18:66162229..66162240
-
Hg19::chr18:66162271..66162278,-p@chr18:66162271..66162278
-
Hg19::chr1:78475606..78475614,+p@chr1:78475606..78475614
+
Hg19::chr1:78475616..78475640,+p@chr1:78475616..78475640
+
Hg19::chr1:78475650..78475661,+p@chr1:78475650..78475661
+
Hg19::chr1:78475671..78475674,+p@chr1:78475671..78475674
+
Hg19::chr2:28351645..28351666,+p@chr2:28351645..28351666
+
Hg19::chr2:40184868..40184873,-p@chr2:40184868..40184873
-
Hg19::chr2:40184895..40184905,-p@chr2:40184895..40184905
-
Hg19::chr2:40270530..40270541,+p@chr2:40270530..40270541
+
Hg19::chr2:40270606..40270613,+p@chr2:40270606..40270613
+
Hg19::chr3:174737010..174737023,+p@chr3:174737010..174737023
+
Hg19::chr4:157695641..157695666,-p14@PDGFC
Hg19::chr4:183072141..183072151,+p@chr4:183072141..183072151
+
Hg19::chr5:14144904..14144927,+p@chr5:14144904..14144927
+
Hg19::chr5:14144959..14144988,+p@chr5:14144959..14144988
+
Hg19::chr5:14145522..14145558,+p@chr5:14145522..14145558
+
Hg19::chr5:14145564..14145573,+p@chr5:14145564..14145573
+
Hg19::chr5:14146234..14146258,-p@chr5:14146234..14146258
-
Hg19::chr5:14165784..14165791,+p@chr5:14165784..14165791
+
Hg19::chr5:14165816..14165851,+p@chr5:14165816..14165851
+
Hg19::chr6:113702561..113702568,-p@chr6:113702561..113702568
-
Hg19::chr6:114168794..114168808,-p@chr6:114168794..114168808
-
Hg19::chr6:139904316..139904323,+p@chr6:139904316..139904323
+
Hg19::chr6:139904348..139904359,+p@chr6:139904348..139904359
+
Hg19::chr6:140325195..140325200,+p@chr6:140325195..140325200
+
Hg19::chr6:140577789..140577799,+p@chr6:140577789..140577799
+
Hg19::chr6:140756139..140756147,+p@chr6:140756139..140756147
+
Hg19::chr6:140981495..140981504,-p@chr6:140981495..140981504
-
Hg19::chr6:140981524..140981529,-p@chr6:140981524..140981529
-
Hg19::chr6:142622621..142622634,+p13@GPR126
Hg19::chr6:142622950..142622959,+p9@GPR126
Hg19::chr6:142622991..142623004,+p3@GPR126
Hg19::chr6:142623032..142623043,+p4@GPR126
Hg19::chr8:24530708..24530710,+p@chr8:24530708..24530710
+


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
non-terminally differentiated cell9.49e-26180
embryonic cell5.71e-15248
fibroblast1.37e-1375
skin fibroblast3.66e-0923
mesodermal cell1.55e-08119
muscle precursor cell3.91e-0757
myoblast3.91e-0757
multi-potent skeletal muscle stem cell3.91e-0757
mesothelial cell4.66e-0719
epithelial cell4.79e-07254
Uber Anatomy
Ontology termp-valuen
organism subdivision7.15e-13365
mesenchyme3.22e-11238
entire embryonic mesenchyme3.22e-11238
trunk6.50e-11216
multi-tissue structure6.27e-10347
surface structure8.50e-1095
trunk mesenchyme1.16e-08143
integument2.32e-0845
integumental system2.32e-0845
skin of body3.06e-0840
somite9.39e-0883
paraxial mesoderm9.39e-0883
presomitic mesoderm9.39e-0883
presumptive segmental plate9.39e-0883
trunk paraxial mesoderm9.39e-0883
presumptive paraxial mesoderm9.39e-0883
dermomyotome4.21e-0770
multilaminar epithelium5.94e-0782


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

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ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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